Merge pull request #1 from pkaifosh/master

Added coverage tracker to readme
pep8 cleanup
Added pep8 check to .travis.yml
Merge branch 'master' of 156.111.43.151:/opt/git/sima
flaking and linting
Added citation to README and docs. Modified docs.
Refactoring of Iterables and _ImagingCycles into Sequences.

Heavily broken at this stage, though HDF5 Sequences work.
Flake8'ed iterables.py
Adjustments to iterables.
Datasets can now be initialized with sequences.
Adjusted _align_frame for 3D frames (but still just 2D corrections)
Bug fix for indexing of Sequences
Removed auto-generated .c files from the repository.
Adapted correlation based correction for 3D.